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Method

Fast and memory efficient partial order alignment with minipoa

  • Haodong Liu
  • Pinglu Zhang
  • Yanming Wei
  • Qinzhong Tian
  • Yixiao Zhai
  • Quan Zou
  • Mengting Niu
  • First Published July 24, 2026
Method

Deep learning the TF regulatory code for gene expression

  • Yuanyuan Li
  • Xiaohui Huang
  • Yixuan Qi
  • Zheng Zhang
  • Hui Ding
  • Quan Zou
  • Li Liu
  • First Published May 15, 2026
Method

Incorporating valuable prior knowledge to improve deep learning prediction of genetic perturbation responses

  • Xiuhao Fu
  • Chao Yang
  • Chunyan Cui
  • Aoyun Geng
  • Yidi Sun
  • Chao Zha Feifei Cui
  • ... [+2 authors] ...,
  • Leyi Wei
  • Quan Zou
  • Xin Gao
  • Zilong Zhang
  • First Published March 26, 2026
Method

N4-methylcytosine sites using a dual-adaptive feature encoding framework in deep ensembles" > EnDeep4mC predicts DNA N4-methylcytosine sites using a dual-adaptive feature encoding framework in deep ensembles

  • Shuyu Zhang
  • Quan Zou
  • Mengting Niu
  • Zhibin Lv
  • Antony Stalin
  • Ximei Luo
  • First Published February 17, 2026
Method

Fast sequence alignment for centromeres with RaMA

  • Pinglu Zhang
  • Yanming Wei
  • Qinzhong Tian
  • Quan Zou
  • Yansu Wang
  • First Published February 12, 2025
Research

Genome-wide mapping reveals R-loops associated with centromeric repeats in maize

  • Yang Liu
  • Qian Liu
  • Handong Su
  • Kunpeng Liu
  • Xue Xiao
  • Wei Li
  • Qianwen Sun
  • James A. Birchler
  • Fangpu Han
  • First Published July 9, 2021
Method

Analysis of alternative polyadenylation from single-cell RNA-seq using scDaPars reveals cell subpopulations invisible to gene expression

  • Yipeng Gao
  • Lei Li
  • Christopher I. Amos
  • Wei Li
  • First Published May 25, 2021
Corrigendum

Corrigendum: 3′ UTR lengthening as a novel mechanism in regulating cellular senescence

  • Meng Chen
  • Guoliang Lyu
  • Miao Han
  • Hongbo Nie
  • Ting Shen
  • Wei Chen Yichi Niu Yifan Song Xueping Li Huan Li Xinyu Chen Ziyue Wang Zheng Xia Wei Li Xiao-Li Tian Chen Ding Jun Gu Yufang Zheng Xinhua Liu
  • ... [+14 authors] ...,
  • Jinfeng Hu
  • Gang Wei
  • Wei Tao
  • Ting Ni
  • First Published September 14, 2020
Method

Profiling the long noncoding RNA interaction network in the regulatory elements of target genes by chromatin in situ reverse transcription sequencing

  • Shilin Zhang
  • Yichen Wang
  • Lin Jia
  • Xue Wen
  • Zhonghua Du
  • Cong Wang Yajing Hao Dehai Yu Lei Zhou Naifei Chen Jingcheng Chen Huiling Chen Hui Zhang Ilkay Celik Günhan Gülsoy Jianjun Luo Baoming Qin Xueling Cui Zhonghui Liu Songling Zhang Miguel A. Esteban Ferhat Ay Wei Xu Runsheng Chen
  • ... [+19 authors] ...,
  • Wei Li
  • Andrew R. Hoffman
  • Ji-Fan Hu
  • Jiuwei Cui
  • First Published July 17, 2019
Method

A novel synthetic-genetic-array–based yeast one-hybrid system for high discovery rate and short processing time

  • Chung-Shu Yeh
  • Zhifeng Wang
  • Fang Miao
  • Hongyan Ma
  • Chung-Ting Kao
  • Tzu-Shu Hsu Jhong-He Yu Er-Tsi Hung Chia-Chang Lin Chen-Yu Kuan Ni-Chiao Tsai Chenguang Zhou Guan-Zheng Qu Jing Jiang Guifeng Liu Jack P. Wang
  • ... [+11 authors] ...,
  • Wei Li
  • Vincent L. Chiang
  • Tien-Hsien Chang
  • Ying-Chung Jimmy Lin
  • First Published June 11, 2019
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